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Programming

R
Bash
Python
Web Development
SQL

Highlights

Highly experienced in:

Motivated and collaborative, recently involved in Machine Learning, NGS data analysis, UK Biobank and genomics prediction

More info

See full CV at cv.ruizsergio.com for a complete list of positions, publications and more



Reference contact details provided upon request

Disclaimer

photo

Source code available in github

Last updated in Mar, 2022

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Sergio Ruiz-Carmona

I am currently a Research Officer and Bioinformatician at the Baker Institute, under the supervision of professor Mike Inouye. My research interests are broad and involve the relationship between genetic variants and their effect on protein structures.

I carried out my MSc and PhD in Barcelona in the Barril Lab, where I worked with different structure-based drug design methods with the aim to improve drug design for non-standard targets.

Selected Education

PhD in Biomedicine

Universitat de Barcelona

Barcelona, ES

2017 - 2012

  • Virtual Screening for novel MoA: Apps. and method developments
  • Development and application of structure-based drug discovery methods
  • Awards: Extraordinary prize for PhD Thesis and Ramon Margalef award for best publication

Selected Positions

Research Officer and Bioinformatician

Inouye Lab
Baker Heart and Diabetes Institute

Melbourne, AUS

Today - 2019

  • I am working in a project that overlaps Structural Biology and Genomics, trying to understand how rare missense variants alter protein structures and can induce disease

Postdoctoral Researcher

Barril Lab, Universitat de Barcelona

Barcelona, ES

2019 - 2017

  • After finishing my PhD, I worked in exciting collaborative projects in the field of epigenetics and cancer, where I carried out multidisciplinary research and learned new experimental skills

Associate Professor

Faculty of Pharmacy, Universitat de Barcelona

Barcelona, ES

2019 - 2015

  • Classes in Pharmacy, Food Science and Nutrition degrees (total 400h)

EMBO Short-Term Fellow

Andreas Bender Lab, Unversity of Cambridge

Cambridge, GB

2017

  • I spent 2 months in one of the main Pharmacogenomics groups in the world, where I used gene-expression profiles of different biological systems to study BRD4 and drug selectivity

Skills and Training

Computational Tools

Drug Discovery (Virtual screening, Molecular dynamics), Machine learning, Data visualization, Statistical analysis, REDCap, Bioinformatics and Data analysis

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Programming

R, Python, Perl, C++, LaTeX, Bash, Java, MySQL, HTML/CSS and Android and Web Development

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Management Skills

2021 EMBO Practical Course: Research to service: Planning and running a bioinformatics core facility; Mental Health and OHS certifications

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Outreach and other activities

Australasian Leadership Computing Grants

Story about NCI Computing Grant

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2021 - 2020

  • Together with Mike Inouye, we were awarded a 1 year computing grant by the Australian National Compuational Infrastructure to study COVID-19 proteins and possible drug treatments

Shiny App development

Related to a project we published in the Journal Circulation

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2021

New tools for new medicines, The Conversation article

Lay-summary of some of my work and opinion for The Conversation Spain

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2021

COVID-19 daily dashboard, until Nov 2020

Personal project to showcase COVID-19 evolution in Victoria during major lockdown in 2020

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2020

Main Scientific Output

The carbon footprint of bioinformatics

Molecular Biology and Evolution
Read it here

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2022

  • Jason G Grealey, […] Sergio Ruiz-Carmona, Michael Inouye

Oxygen Pathway Limitations in Patients with Chronic Thromboembolic Pulmonary Hypertension

Circulation
Read it here

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2021

  • Erin J Howden *, Sergio Ruiz-Carmona *, […] Andre La Gerche, Marion Delcroix and Guido Claessen
  • Result of a Bioinformatics Core collaboration. Shiny app developed

Loss of the long non-coding RNA OIP5-AS1 exacerbates heart failure in a sex-specific manner

iScience
Read it here

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2021

  • Aowen Zhuang, A Calkin, […] Sergio Ruiz-Carmona, […] and Brian G Drew
  • Result of a Bioinformatics Core collaboration

Dynamic undocking and the quasi-bound state as tools for drug discovery

Nature Chemistry
Read it here

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2017

  • Sergio Ruiz-Carmona, Peter Schmidtke, […] Rod Hubbard and Xavier Barril
  • Highlighted in its issue cover

rDock: a fast, versatile and open source program for docking ligands to proteins and nucleic acids

PLoS Computational Biology
Read it here

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2014

  • Sergio Ruiz-Carmona, Daniel Alvarez-Garcia, […] Xavier Barril, Rod Hubbard and S David Morley

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Everyday toolbox

Web

I have also developed rDock and Barril Lab websites, used as dissemination platforms where the different tutorials and blog entries are shared with the community



I have been involved in more than 20 collaborative projects in very different fields. I enjoy helping other researchers and collaborators to work in common scientific challenges

My ultimate goal is to help people: from drug discovery to precision medicine and hospital care data analysis